{"id":19215846,"url":"https://github.com/vanvalenlab/deepcelltypes-demo-08-2023","last_synced_at":"2026-06-24T00:02:22.345Z","repository":{"id":190739849,"uuid":"683260599","full_name":"vanvalenlab/deepcelltypes-demo-08-2023","owner":"vanvalenlab","description":"Executable demo of deepcelltypes model pipeline","archived":false,"fork":false,"pushed_at":"2023-08-26T02:50:05.000Z","size":16,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":2,"default_branch":"main","last_synced_at":"2025-01-04T18:31:42.677Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/vanvalenlab.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null}},"created_at":"2023-08-26T02:26:58.000Z","updated_at":"2023-08-26T02:27:24.000Z","dependencies_parsed_at":"2023-08-26T06:23:15.239Z","dependency_job_id":null,"html_url":"https://github.com/vanvalenlab/deepcelltypes-demo-08-2023","commit_stats":null,"previous_names":["vanvalenlab/deepcelltypes-demo-08-2023"],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vanvalenlab%2Fdeepcelltypes-demo-08-2023","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vanvalenlab%2Fdeepcelltypes-demo-08-2023/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vanvalenlab%2Fdeepcelltypes-demo-08-2023/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vanvalenlab%2Fdeepcelltypes-demo-08-2023/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/vanvalenlab","download_url":"https://codeload.github.com/vanvalenlab/deepcelltypes-demo-08-2023/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":240291449,"owners_count":19778269,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":[],"created_at":"2024-11-09T14:14:58.989Z","updated_at":"2026-06-24T00:02:17.322Z","avatar_url":"https://github.com/vanvalenlab.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"# `deepcelltypes` interactive demo\n\nCell-type prediction for multiplexed spatial proteomic data.\n\nTo run the demo, you will need:\n#. Python\n#. A running docker daemon\n#. The prototype model and example data\n\n## Setup\n\n### Docker\n\nEnsure that your docker daemon is running and doesn't require elevated\npermissions:\n\n```bash\ndocker run hello-world\n```\n\n### Python\n\nCreate a Python virtual environment and install the necessary dependencies:\n\n```bash\npython -m venv demo-env\nsource demo-env/bin/activate  # or whichever script is appropriate for your shell\npip install -r requirements.txt\n```\n\n### Model and example data\n\nThe model is not (yet) publicly available as it is currently under development.\nFor access to the demo data and model prototype, direct inquiries to\nvanvalenlab@gmail.com.\n\nThe model and data should be unpacked in the top-level directory of this\nrepository:\n\n```bash\ntar -xzf demo_data_model.tar.gz\n```\n\n## Running the demo\n\nThe demo is available in the form of a markdown-based jupyter notebook.\nLaunch a new session with:\n\n```bash\njupyter notebook\n```\n\nThen right-click `presentation.md` and select `Jupytext Notebook` from the \n`Open with` menu.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fvanvalenlab%2Fdeepcelltypes-demo-08-2023","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fvanvalenlab%2Fdeepcelltypes-demo-08-2023","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fvanvalenlab%2Fdeepcelltypes-demo-08-2023/lists"}